As the governor plans midyear cuts of 1 percent to local aid and other cuts to school transportation and special education, one school learned Wednesday it is facing a 7 percent cut. The Massachusetts Academy of Math and Science, a Grade 11-12 school that is the only one of its kind in the state, will lose $100,000 under the governor’s proposals.

The 20-year-old school, which is run in collaboration with Worcester Polytechnic Institute, is its own district but is not a charter school. It is called a “school of excellence” and is designed to prepare advanced students for science, technology, engineering and mathematics degrees. It also has its own line item, called “schools of excellence,” in the state budget, which sometimes causes confusion.

In 2009, for instance, state leaders proposed cutting the school’s money altogether, apparently because they didn’t realize it funded a public school.

This year, the governor plans to cut the school’s $1.4 million budget by $100,000, or 7 percent.

“It was a mistake. I’m being optimistic,” said Arthur C. Heinricher, WPI’s dean of undergraduate studies.

Michael G. Barney, academy director, believes the school’s cut is $100,000 because that is the amount its budget increased this year. After hitting a high of $1.375 million in fiscal 2008 and ’09, the school’s budget dropped for two years and was $1.3 million from fiscal 2010 through fiscal 2012. The $100,000 in additional state money this year increased staff salaries and paid for more professional development outreach to other schools’ teachers. Approximately 6,000 teachers have attended training at the school since 2001.

The school is open to students anywhere in the state but does not provide transportation. It has 9.5 employees: Seven teachers, a half-time professional development specialist, a college counselor and a director.

Approximately 70 parents of students at the school have called legislators or the governor about the cut, Mr. Barney said, and he had a conference call with the office of the state secretary of finance.

If the state reduced the cut to 1 percent of the school’s state aid, Mr. Heinricher said he would be “ebullient.”

While the state pays a large part of the school’s costs, so does WPI. The entire senior class takes all of its courses at the college. The state pays about $330,000 for tuition that would normally cost $2 million, Mr. Heinricher said. The university also pays the school’s lease at 85 Prescott St.

Fifty-five percent of the school’s graduates live and work in Massachusetts.

“The kids coming out of the school do more in the future to help the economy,” Mr. Heinricher said. “It’s a cheap investment.”

The governor identified the cuts to address lower-than-expected revenues that are projected to create a half-billion-dollar state budget deficit.

State Sen. Michael O. Moore, D-Millbury, who opposes the 1 percent cut to local aid, said he has talked with the governor’s office about the academy reduction, which he hopes to see reduced to 1 percent. “These are the type of students that we’re trying to promote,” he said, “the direction that we want students to go in. We shouldn’t be cutting above and beyond our other public schools.”

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